Hej Mike,

sometimes I also use latex for code documentation with doxygen, for an 
equation line:

 \f[
   \partial_t u -\nabla \cdot \epsilon \nabla u + \boldsymbol b \cdot 
\nabla u = f\,,\quad \text{in } \Omega \times I\,,
 \f]

and

\f$ \Omega = (0,1)^d \f$ 

for latex within the text line.

I'm not sure, if statements like \begin{equation} etc. will work, the tex 
system behind doxygen is sometimes very poor. On you local machine it may 
take your (powerful) latex installation.

Kind regards
  Uwe

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